Pathlib object handling for Universe, SingleFrameReaderBase and Toplogy parsers (Issue #3937)

package/AUTHORS

@@ -236,6 +236,7 @@ Chronological list of authors
   2024
   - Aditya Keshari
   - Philipp Stärk
+  - Valerij Talagayev
 
 External code
 -------------

package/CHANGELOG

@@ -16,7 +16,7 @@ The rules for this file:
 -------------------------------------------------------------------------------
 ??/??/?? IAlibay, HeetVekariya, marinegor, lilyminium, RMeli,
          ljwoods2, aditya292002, pstaerk, PicoCentauri, BFedder,
-         tyler.je.reddy
+         tyler.je.reddy, talagayev
 
  * 2.8.0
 
@@ -34,6 +34,7 @@ Fixes
  * Fix deploy action to use the correct version of the pypi upload action.
 
 Enhancements
+ * Implementation of tests for str and pathlib handling of SingleFrameReaderBase (Issue #3937)
  * Improved performance of PDBWriter (Issue #2785, PR #4472)
  * Added parsing of arbitrary columns of the LAMMPS dump parser. (Issue #3504)
  * Documented the r0 attribute in the `Contacts` class and added the 

testsuite/MDAnalysisTests/coordinates/test_gro.py

@@ -21,6 +21,7 @@
 # J. Comput. Chem. 32 (2011), 2319--2327, doi:10.1002/jcc.21787
 #
 from io import StringIO
+from pathlib import Path
 
 import MDAnalysis as mda
 import numpy as np
@@ -46,7 +47,6 @@
     assert_equal,
 )
 import pytest
-from io import StringIO
 
 
 class TestGROReaderOld(RefAdK):
@@ -529,3 +529,16 @@ def test_gro_empty_box_write_read(tmpdir):
         with pytest.warns(UserWarning, match=wmsg):
             u2 = mda.Universe('test.gro')
         assert u2.dimensions is None
+
+
+def test_gro_pathlib_singleframereaderbase():
+    top = Path(GRO)
+    assert isinstance(top, Path)
+    u = mda.Universe(top)
+    assert u.atoms.n_atoms == 47681
+
+
+def test_gro_string_singleframereaderbase():
+    assert isinstance(GRO, str)
+    u = mda.Universe(GRO)
+    assert u.atoms.n_atoms == 47681

testsuite/MDAnalysisTests/coordinates/test_lammps.py

@@ -30,6 +30,7 @@
 from MDAnalysis import NoDataError
 
 from numpy.testing import (assert_equal, assert_allclose)
+from pathlib import Path
 
 from MDAnalysisTests import make_Universe
 from MDAnalysisTests.coordinates.reference import (
@@ -819,3 +820,16 @@ def test_box(self, u_dump, u_data, reference_box):
                             rtol=1e-5, atol=0)
 
         assert_allclose(u_data.dimensions, reference_box, rtol=1e-5, atol=0)
+
+
+def test_pathlib_lammps_singleframereaderbase():
+    top = Path(LAMMPSdata)
+    assert isinstance(top, Path)
+    u = mda.Universe(top)
+    assert u.atoms.n_atoms == 18364
+
+
+def test_string_lammps_singleframereaderbase():
+    assert isinstance(LAMMPSdata, str)
+    u = mda.Universe(LAMMPSdata)
+    assert u.atoms.n_atoms == 18364